Dataset Information

Phenotypic and genotypic relationships between meat quality characteristics and expression of target genes associated with broiler meat quality defects

ABSTRACT: The objective of this project was to employ customized Agilent 8x60 chicken whole genome microarray to identify differentially expressed genes associated with white striping (WS) and wooden breast (WB) defects in breast meat collected from commercial broilers with different slaughter age. Following harvest of chicken breasts (n = 184), the breast samples were classified as based on their appearance into non-defect, WS or WB. The defective samples were further grouped based on defect severity (WS = mild, moderate, severe; WB = moderate, severe). A total numbers of 40 samples were selected to represent various degree of the defects. Total RNA from deep-frozen skeletal muscle was isolated, integrity check (RIN > 7.0) and subjected for one-colored microarray hybridization according to Agilent’s instruction. The array was designed (design ID: AMADID G4102A084792) based on the National Center for Biotechnology Information (NCBI) Gallus gallus Annotation Release 103 (https://www.ncbi.nlm.nih.gov/genome/annotation_euk/Gallus_gallus/103/). Differential gene expression (p-value < 0.05) was confirmed using qPCR and droplet digital PCR. Biological pathways associated with WS and WB were identified.

ORGANISM(S): Gallus gallus

PROVIDER: GSE107362 | GEO | 2018/05/01

REPOSITORIES: GEO

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Project description:Improvement of feed efficiency would increase profitability of the poultry industries by decreasing the amount of feed required for production. Korat (KR) chicken is a new alternative meat-type chicken breed which its meat is recognized for its high protein, low fat and low purine content, whereas its low feed efficiency leads to high cost of production. Deeper understanding on how feed efficiency influences meat quality is poorly elucidated. To fulfill deeper understand molecular key that point the variation in feed efficiency and meat quality, the aim of this study was to investigate molecular pathways and genes involved in feed efficiency and meat quality in thigh of slow-growing KR chicken. A total of 75 males KR chicken were reared in individual cage until 10 weeks of age. Individual feed intake and body weight were collected weekly to calculate Feed Conversion Ratio (FCR) and Residual Feed Intake (RFI). Meat quality parameters were measured in thigh muscles such as ultimate pH (pHu), water-holding capacity (WHC), drip loss (DL), nucleotides content and several biomolecules (amide, …). Base on extreme values of FCR at 10 weeks of ages, 12 birds from the high FCR group (HFCR) and 9 birds from the low FCR group (LFCR) were selected for investigating their transcriptome using an 8×60K Agilent chicken microarray. In addition, a weighted gene coexpression network analysis was performed to detect the relationship between modules of co-expressed genes and feed efficiency, meat quality in thigh muscle. The result in this study indicated that selection on feed efficiency (FCR, RFI) would affect flavor precursor, lipid and protein content in thigh muscle. Based on WGCNA and functional enrichment analysis, results suggested that the key molecular pathways relate to FCR, RFI and meat quality (WHC, DL, IMP, AMP and inosine) in thigh muscle were the pathways of regulation of biological process, biological regulation and regulation of metabolic. Moreover, we revealed four genes there are assembly competence domain (ACD) gene, baculoviral IAP repeat containing 5 (BIRC5) gene, cytochrome c oxidase assembly factor 3 (COA3) gene and myosin light chain 9 (MYL9) gene that might be biomarker gene in feed efficiency and meat quality in thigh muscle. The hypothesis of the current study was alteration feed efficiency in slow-growing chicken will impact meat quality especially in term of texture and flavor.

Dataset Information

Phenotypic and genotypic relationships between meat quality characteristics and expression of target genes associated with broiler meat quality defects

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